Expression of sterol regulatory element-binding transcription factor (SREBF) 2 and SREBF cleavage-activating protein (SCAP) in human atheroma and the association of their allelic variants with sudden cardiac death
© Fan et al; licensee BioMed Central Ltd. 2008
Received: 29 June 2008
Accepted: 30 December 2008
Published: 30 December 2008
Disturbed cellular cholesterol homeostasis may lead to accumulation of cholesterol in human atheroma plaques. Cellular cholesterol homeostasis is controlled by the sterol regulatory element-binding transcription factor 2 (SREBF-2) and the SREBF cleavage-activating protein (SCAP). We investigated whole genome expression in a series of human atherosclerotic samples from different vascular territories and studied whether the non-synonymous coding variants in the interacting domains of two genes, SREBF-2 1784G>C (rs2228314) and SCAP 2386A>G, are related to the progression of coronary atherosclerosis and the risk of pre-hospital sudden cardiac death (SCD).
Whole genome expression profiling was completed in twenty vascular samples from carotid, aortic and femoral atherosclerotic plaques and six control samples from internal mammary arteries. Three hundred sudden pre-hospital deaths of middle-aged (33–69 years) Caucasian Finnish men were subjected to detailed autopsy in the Helsinki Sudden Death Study. Coronary narrowing and areas of coronary wall covered with fatty streaks or fibrotic, calcified or complicated lesions were measured and related to the SREBF-2 and SCAP genotypes.
Whole genome expression profiling showed a significant (p = 0.02) down-regulation of SREBF-2 in atherosclerotic carotid plaques (types IV-V), but not in the aorta or femoral arteries (p = NS for both), as compared with the histologically confirmed non-atherosclerotic tissues. In logistic regression analysis, a significant interaction between the SREBF-2 1784G>C and the SCAP 2386A>G genotype was observed on the risk of SCD (p = 0.046). Men with the SREBF-2 C allele and the SCAP G allele had a significantly increased risk of SCD (OR 2.68, 95% CI 1.07–6.71), compared to SCAP AA homologous subjects carrying the SREBF-2 C allele. Furthermore, similar trends for having complicated lesions and for the occurrence of thrombosis were found, although the results were not statistically significant.
The results suggest that the allelic variants (SREBF-2 1784G>C and SCAP 2386A>G) in the cholesterol homeostasis regulating SREBF-SCAP pathway may contribute to SCD in early middle-aged men.
Cholesterol is an essential component of cellular membranes. Cellular cholesterol homeostasis is controlled by sterol regulatory element-binding transcription factors (SREBFs), which are transcription factors that modulate the transcription of genes involved in lipid and cholesterol metabolism. In sterol-depleted cells, SREBF cleavage activating protein (SCAP) forms a complex with SREBF and assists in its transportation to the Golgi apparatus where it can be processed by two specific proteases and then release the amino-terminal transcription-activation domain of the SREBF. The active form of SREBF can then travel to the nucleus where it binds to the promoters of target genes . The SREBFs consist of three different SREBF isoforms, SREBF-1a, SREBF-1c and SREBF-2. They are produced by two genes, with SREBF-1a and -1c transcribed from a single gene by alternative promoter use and splicing, and SREBF-2 from a separate gene . There is considerable evidence suggesting that SREBF-2 is closely associated with cholesterol metabolism, while SREBF-1 is more associated with the control of genes involved in fatty acid metabolism [3, 4].
As regulatory factors of cellular cholesterol metabolism, SREBF-2 as well as SCAP together with low-density lipoprotein receptor and 3-hydroxy-3-methylglutaryl coenzyme A reductase are assumed to be down-regulated in human atherosclerotic plaques due to the cholesterol overload. However, we were able to find only one publication quantitatively comparing the expression of SREBF-2 mRNA in human atherosclerotic plaques with nearby macroscopically intact carotid artery tissue . This analysis revealed no differences in the expression of low-density lipoprotein receptor, 3-hydroxy-3-methylglutaryl coenzyme A reductase or SREBF-2 between the plaque and the control tissues with no histological classification of atherosclerosis .
Given the central role of the SREBF-SCAP pathway in the regulation of cholesterol, the variation in the SREBF-2 and SCAP locus might affect the progression of atherosclerosis. SREBF-2 is encoded by a gene (sterol regulatory element binding transcription factor, SREBF-2) on human chromosome 22q13 , which is composed of 19 exons . A common polymorphism is located in exon 10, namely the 1784G>C (rs2228314) transversion resulting in the substitution of a glycine by an alanine at amino acid 595 of the SREBF-2 protein. This polymorphism was reported to be associated with serum levels of total cholesterol in hypercholesterolemic subjects from Switzerland and Israel  and from northern China . This polymorphism was also associated with the intima-media thickness in French asymptomatic men .
SCAP is a membrane-bound protein containing two distinct domains: a sterol-sensing domain which serves as a cell cholesterol sensor and a carboxy-terminal domain with multiple WD repeats which mediates protein-protein interaction . The human SCAP gene is located at chromosome 3p21.3 with 23 exons . The SCAP gene has an exonic polymorphism located at exon 16 (A-to-G transition, 2386A>G) and leading to isoleucine-to-valine substitution (I796V) . This polymorphism has been reported to be a significant predictor of the response of total cholesterol and triglyceride levels to simvastatin treatment , but not to fluvastatin  and pravastatin therapy .
There are two publications about the interaction effect of SREBF-2 1784G>C and SCAP 2386A>G at present. The combination of SREBF-2 1784G>C and SCAP 2386A>G has an effect on LDL cholesterol levels among familial hypercholesterolemia females . Interestingly, the SCAP 2386A>G genotypes were found to modify the association between SREBF-2 1784G>C and myocardial infarction (MI) in men .
Therefore, we investigated the expression of SREBF-2 and SCAP in human atherosclerotic tissues and compared them in different arterial beds, i.e. the carotid, aorta and femoral region, to methodologically accurately confirmed normal arterial tissue. We also related the variations 1784G>C and 2386A>G in the interacting domains of the SREBF-2 and SCAP genes to the areas of the different types of atherosclerotic lesions in the coronary arteries and to the risk of sudden cardiac death (SCD) and acute myocardial infarction (AMI) in an autopsy series of 300 Finnish men included in the Helsinki Sudden Death Study (HSDS).
The vascular sample series consists of 20 samples from the carotid artery, the femoral artery and the abdominal aorta (15 males, 5 females, aged 69 ± 11 years). Six control samples were taken from internal mammary arteries (4 males, 2 females, aged 66 ± 11 years). The study was approved by the Ethics Committee of Tampere University Hospital, and the study subjects gave their informed consent. The samples were taken from patients subjected to open vascular surgical procedures at the Division of Vascular Surgery, Tampere University Hospital. The vascular samples were histologically classified according to the recommendations of the American Heart Association .
RNA isolation and genome-wide expression analysis
The fresh tissue samples were soaked in RNALater solution (Ambion Inc., Austin, TX, USA) and isolated with Trizol reagent (Intitrogen, Carlsbad, CA, USA) and the RNAEasy Kit (Qiagen, Valencia, CA, USA). The concentration and quality of RNA were evaluated spectrophotometrically with Agilent (BioPhotometer, Eppendorf, Wesseling-Berzdorf, Germany). Over 23,000 known genes and gene candidates were analyzed using Sentrix Human-8 Expression BeadChips, according to manufacturer's instructions (Illumina, San Diego, CA, USA). In brief, 200 ng aliquot of total RNA from each sample was amplified to cDNA. In vitro transcription reaction of cDNA to cRNA was performed overnight (14 h) including biotin-11-dUTP for labeling the cRNA product. Each sample cRNA (1500 ng) was hybridized to Illumina's Sentrix Human-8 Expression BeadChip arrays. Hybridized biotinylated cRNA was detected with 1 μg/ml Cyanine3-streptavidine (Amersham Biosciences, Pistacataway, NJ, USA). BeadChips were scanned with the Illumina BeadArray Reader. The method has been described in more detail previously .
Bioinformatics analysis of homology recognition of protein sequences and two SNPs
Sequence homologues for the SCAP and SREBF-2 proteins were obtained by PSI-BLAST . The bioinformatics analysis of the mutations was performed at the sequence level as described by Thusberg et al. . The secondary structures were predicted by the programmes PSIPRED  and PHD .
Helsinki Sudden Death Autopsy Study
The HSDS was launched to study the lifestyle and genetic factors predisposing to sudden death in Finnish middle-aged men who lived in Helsinki and its surroundings. The present autopsy series was collected during 1991–1992 (n = 300) at the Department of Forensic Medicine, University of Helsinki. The cause of death was cardiac in 39% (n = 117), other diseases in 21% (n = 63) and suicides or accidents in 40% (n = 120) of the subjects. The study was approved by the Ethics Committee of the Department of Forensic Medicine, University of Helsinki.
Measurement of the area of atherosclerosis by computer-assisted morphometry
At autopsy, the proximal parts of the left anterior descending coronary artery (LAD), right coronary artery (RCA) and left circumflex coronary artery (LCX) were collected for analysis. The definition of atherosclerotic lesions was based on the protocols of two international studies: the International Atherosclerosis Project, Standard Operating Protocol 1962  and the WHO Study Group in Europe . The areas of coronary artery wall covered by fatty streaks as well as fibrous and complicated lesions were measured with a computer-assisted planimetric technique. The details have been described in a previous publication . The areas of coronary artery calcification were measured by examining the radiograph taken from the dissected coronary arteries. The mean proportional area of each particular atherosclerotic change in the three coronary arteries was used for statistical analysis. Of the series of 300 men, arterial samples for the measurements of atherosclerotic changes were available from 290 men for the analysis of three coronary arteries.
Measuring the percentage of stenosis in silicone rubber casts of the coronary arteries
At autopsy, coronary angiography was performed using vulcanising liquid silicone rubber . The proximal, middle and distal stenosis of the main trunks of the three main epicardial coronary arteries (LAD, LCX and RCA) were measured from the rubber cast model. The stenosis percentage was obtained by dividing the diameter (millimetres) of the greatest stenosis by the diameter of the nearest proximal undamaged part of the cast model of the artery, resulting in nine measurements of the degree of stenosis for each individual. The most severe stenosis was used to define the extent of coronary narrowing for each individual. These measurements were available for 279 men.
Determining the MI phenotype at autopsy
Coronary thrombosis and myocardial infarction were recorded at autopsy, and the presence of MI was confirmed by nitro blue tetrazolium staining and by a histological examination of the myocardium. The presence of neutrophil granulocytes was considered diagnostic of an AMI. Thrombosis was defined by a reddish clot attached to the coronary wall if the clot could not be detached with saline flushing.
Collection of risk factor data
A spouse, a relative or a close friend of the deceased could be interviewed in 147 cases. The questionnaire included a review of risk factors including hypertension, diabetes, past and recent smoking, drinking habits and previous illnesses. On the basis of these interviews, men were classified as smokers or non-smokers. Ex-smokers were included in the category of smokers for statistical analysis. Average daily alcohol consumption of the deceased was calculated based on the information given by the persons interviewed. Based on questions concerning previous illnesses, 50 men had suffered from hypertension and 22 from diabetes.
DNA extraction and genotyping
DNA was extracted from frozen cardiac muscle samples. The SCAP 2386A>G genotyping was based on PCR amplification, restriction enzyme analysis and DNA electrophoresis. The DNA samples were amplified by PCR, using the primers 5'-TTGTGCTGCGCGGCCACCTCA-3' and 5'-AGGAGGAAAGGGCAGCCGCAC-3'. PCR was performed in a volume of 50 μl. Cycle conditions were 94°C for 4 min, then 28 cycles of 94°C for 1 min, 64°C for 1 min and 72°C for 1 min, with a final extension step of 5 min at 72°C in a PTC-225 thermal cycler (MJ research, Massachusetts, USA). 10% DMSO was included in PCR reaction. The PCR-amplified DNA fragment was incubated for 16 hours with 10 U of MslI (New England Biolabs). Electrophoresis was performed on a 3% agarose gel containing ethidium bromide. Genotype information was obtained for 269 men.
For the SREBF-2 1784G>C genotyping, DNA samples were genotyped by employing the 5' nuclease assay for allelic discrimination, with the ABI Prism 7000 Sequence Detection System (Applied Biosystems, Foster City, CA). PCR reaction containing genomic DNA, 2 × TaqMan universal PCR Master Mix, 900 nM of each primer and 200 nM of each probe was performed in 96-well plates according to standard protocol in a total volume of 25 μl. After cycling, end-point fluorescence was measured, and genotype calling was carried out by the allelic discrimination analysis module. Genotyping was successful in 271 men. As a means of quality control for genotyping, empty controls and random duplicate samples were used.
The non-parametric Mann-Whitney U test was used for comparison of gene expression between atherosclerotic and control tissues. Complete data on SREBF-2 and SCAP genotypes as well as autopsy data were available in 247 cases; this autopsy cohort constituted the final study population. Data analysis for continuous variables was based on analysis of variance (ANOVA) and analysis of covariance (ANCOVA), in which the possible confounding effects of age, body mass index (BMI) and hypertension were taken into account by including them in the model as covariates. Categorical variables were compared with the χ2 test. Fisher's exact test was used to test the genotype frequencies under Hardy-Weinberg equilibrium. Non-normally distributed data concerning the areas of atherosclerotic changes were analysed after square-root transformation, but the results are displayed as crude data. We analysed the interaction between SREBF-2 1784G>C and SCAP 2386A>G genotypes using logistic regression. Logistic regression analysis was also used to determine odds ratios for SCD according to SREBF-2 1784G>C and SCAP 2386A>G genotype groups. The statistical analysis was performed by means of SPSS Version 14.0.1 (SPSS Inc., Chicago, USA). The level of significance was set at p < 0.05.
SREBF-2 and SCAP expression in atherosclerotic tissue
The SREBF-2 gene expression was reduced 1.5-, 1.1- and 1.3-fold in the carotid artery (n = 9), aorta (n = 7) and femoral artery (n = 4), respectively. Only the SREBF-2 expression level in the carotid artery was significantly lower in atherosclerotic tissue than in control tissue (n = 6, p = 0.02 by Mann-Whitney U test). The similar trend of the SCAP gene expression was also found in three arteries, although it did not reach statistically significant. When all atherosclerotic arterial samples (type IV-V plaques) were pooled, there were no differences in the mean gene expression of either SREBF-2 or SCAP in atherosclerotic tissue as compared with histologically confirmed healthy control samples (type 0).
The search by PSI-BLAST yielded 64 homologue sequences for SCAP and 62 sequences for SREBF-2, after the removal of duplicates and hypothetical proteins.
The mutation position in SCAP is physicochemically conserved (the conserved property is hydrophobicity), and the frequencies of the physiochemically similar amino acids (V, L and I) are approximately equal. The disease-causing mutation studied here (I796V) is thus a conservative substitution. The mutation position in SREBF-2 is not at all conserved, and the following amino acids are found at this position: Y, V, T, S, R, Q, L, K, G, E and A. Q and E are the amino acids with the highest frequency of occurrence in the alignment. The mutations do not seem to have a direct structural effect on the proteins.
Characteristics of SREBF-2 and SCAP genotypes in study subjects and their association with the area of different atherosclerotic changes
Characteristics of the study subjects by SCAP and SREBF-2 genotype
Number of subjects
51.9 ± 9.5
51.6 ± 9.4
55.6 ± 10.3
51.9 ± 9.3
52.9 ± 9.9
49.1 ± 11.0
25.4 ± 5.1
25.4 ± 4.9
24.3 ± 4.1
25.2 ± 4.9
25.3 ± 4.7
25.1 ± 6.3
Alcohol consumption (g/day)
101.5 ± 116.4
106.5 ± 106.6
74.0 ± 68.2
110. 8 ± 110.9
91.9 ± 100.4
42.7 ± 84.2
Mean percent area of different types of atherosclerotic lesions in coronary arteries by SCAP and SREBF-2 genotype
5.75 ± 4.87
6.12 ± 5.14
4.90 ± 4.19
5.51 ± 4.21
6.60 ± 5.88
3.17 ± 2.93
3.06 ± 3.29
3.40 ± 3.77
2.95 ± 3.46
3.05 ± 3.44
3.61 ± 3.82
2.01 ± 2.45
0.68 ± 1.95
1.64 ± 4.12
1.17 ± 2.38
1.26 ± 3.83
1.26 ± 2.66
1.10 ± 1.83
2.08 ± 3.23
2.59 ± 4.97
3.06 ± 5.68
2.63 ± 4.73
2.38 ± 4.43
1.10 ± 2.46
36.99 ± 23.23
37.08 ± 21.12
38.36 ± 21.76
36.10 ± 22.26
39.14 ± 21.20
34.47 ± 22.92
The interaction of SREBF-2 and SCAP genotypes on the risk of SCD
Joint association between SCAP and SREBF-2 genotypes and SCD risk
Number of subjects
OR (95% CI)
Distributions of SCAP and SREBF-2 genotypes among men with SCD, AMI, thrombosis and complicated lesions (CL), and among those who had not suffered from the same at the time of death
We showed that SREBF-2 expression in the carotid artery was decreased in atherosclerotic tissue as compared to histologically confirmed healthy control tissue. The similar trend of SCAP gene expression was also found, although there was no statistically significant difference between the atherosclerotic tissue and control samples. In the present study, the SREBF-2 1784G>C or SCAP 2386A>G genotypes were also not associated with SCD alone. However, we found that the SREBF-2 1784G>C and SCAP 2386A>G genotypes have a significant interaction on the risk of SCD. The combination of the SREBF-2 C allele and the SCAP G allele was associated with an increased risk of SCD when compared with subjects carrying the SREBF-2 C allele and the SCAP AA genotype. Our results also suggest that this association may be due to the presence of more complicated lesions and thrombosis among the subjects with the SREBF-2 C allele in combination with the SCAP G allele.
Serum cholesterol is a major component in the causal pathway of atherosclerosis, which has been verified in familial hypercholesterolemia patients . The cellular cholesterol homeostasis is subject to a regulatory feedback system that senses the level of cholesterol in cellular membranes and modulates the transcription of genes encoding enzymes involved in cholesterol biosynthesis and in the uptake of plasma lipoproteins. As regulators of this cholesterol metabolism, SREBF-2 and SCAP might play a role in the progression of atherosclerosis. Our gene expression results with human tissues are in agreement with in vivo findings indicating that SREBF-2 is down-regulated by hypercholesterolemia in porcine aortas . In another study, Forcheron et al. observed that the mRNA expression of SREBF-2 was unchanged in human atheroma when compared with nearby macroscopically intact tissue . Although there was no histological evidence of atherosclerosis in the control vessels, however, the absence of atherosclerosis cannot be explicitly excluded, and thus it is therefore possible that the expression of SREBF-2 was already near-maximally suppressed, explaining the results of unaltered relative gene expression. Therefore, our results support the notion of the suppression of SREBF-2 in atherosclerotic lesions which are usually bathed in high levels of lipoproteins.
The SREBF-2 1784G>C variant is located in carboxyl-terminal regulating region, which forms a complex with the carboxyl-terminal WD repeat domain that contains SCAP 2386A>G substitution. Therefore, the domains of SREBF-2 and SCAP that contain the SREBF-2 1784G>C and SCAP 2386A>G variation directly interact with each other. A functional study of the SREBF-2 1784G>C variant has shown that the SREBF-2 CC isoform results in a decreased SREBF-2 cleavage-rate in vitro . Moreover, this variant was associated with serum total cholesterol in hypercholesterolemic subjects [7, 8], and carotid intima media thickness values were higher in homozygous subjects for the presence of the C allele . However, no functional studies of the SCAP 2386A>G variant have been carried out. There are only several studies with conflicting results regarding the influence of the SCAP 2386A>G variant on lipid-lowering therapy [13–15].
Our results are in accordance with a previous study in which the SREBF-2 C allele in combination with the SCAP G allele was associated with an increased risk of MI in males . Our results extend the existing data, since there is no previous evidence suggesting that the same allelic combination of the SREBF-SCAP pathway that alters the risk of MI is also associated with the risk of SCD. The interaction of the SREBF-2 1784G>C and the SCAP 2386A>G variant on SCD risk observed in our study may be partially due to an impaired formation and/or decreased stability of the SCAP/SREBF-2 complex and to altered interaction function, therefore altering cholesterol metabolism in human cells. A possible explanation through bioinformatics analysis for these two variations is that there is a physical interaction between these amino acids (SCAP 796 and SREBF-2 595), and this interaction is prevented by the variations, impairing the formation of the SCAP/SREBF-2 complex. However, because 3D structures of these proteins are not available, this must be interpreted with caution. According to the secondary structure predictions, the 1784G>C position in SREBF-2 is in α-helix. Equally high confidence values were obtained for the 2386A>G position in SCAP, but for a β-strand. The mutant sites are therefore on the ordered secondary structural elements and possibly on the surface of the proteins, which is supported by many predictors when the amino acid substitutions are considered to be tolerated. However, our study is epidemiological in nature and still need for empirical in silico proof for the interaction.
The limitations of our study include the two distinct sample materials we used: The vascular samples collected from elective patients subjected to open vascular surgical procedures were used for the SREBF-2 and SCAP mRNA expression study, and the HSDS samples were used for the association study between SREBF-2 1784G>C as well as SCAP 2386A>G and coronary atherosclerosis. The form of atherosclerosis in these two materials might be different, because they were collected from different vascular territories with different local haemodynamic conditions. Other limitations are related to the nature of autopsy studies: since the subjects had died suddenly and most of them had not seen a doctor nor had any blood samples taken prior to their death, we were unable to determine the lipid levels. We also did not measure the cholesterol and apolipoprotein levels in post-mortem samples. Furthermore, this study only enrolled Finnish men. We cannot ascertain whether the interactive effect of the SREBF-2 1784G>C and the SCAP 2386A>G variant would extend to other populations or women, as well.
In summary, we demonstrated a down-regulated expression of SREBF-2 in atherosclerotic carotid plaques as compared with histologically confirmed normal tissues. We also showed a gene-gene interaction between the SREBF-2 1784G>C and the SCAP 2386A>G genotypes on the risk of developing SCD in middle-aged men. We conclude that SREBF-2 and SCAP may be implicated in the progression of atherosclerosis and the risk of developing SCD. Future structure-function and replication studies with large samples are required to improve the understanding of how SREBF-2 and SCAP function, in addition to explaining the results presented here.
The study was supported by grants from the Medical Research Fund of the Tampere University Hospital, the Pirkanmaa Regional Fund of the Finnish Cultural Foundation, the Research Foundation of Orion Corporation, the Finnish Foundation of Cardiovascular Research, the Juho Vainio Foundation, the Ida Montin Foundation, the Emil Aaltonen Foundation (T.L.), the Academy of Finland, and Tampere Graduate School in Biomedicine and Biotechnology. Dr. Niku Oksala was supported by grants from the Finnish Angiology Association, the Maire Taponen foundation and the Paavo Nurmi Foundation. We thank Dr. Markus Perola for assistance. We thank Seppo Tyynelä for the planimetric measurements.
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